Array 1 274560-277618 **** Predicted by CRISPRDetect 2.4 *** >NZ_JWRA01000016.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN024722 CFSAN024722_contig0015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 274560 29 100.0 32 ............................. CACATTTCCTCAGTGTGCTTCAGAGGGTGGTA 274621 29 100.0 32 ............................. CCGATATCAAAAAAGCGTTTAAACGCCTTGCC 274682 29 96.6 32 ............................T TCCTGCGCTTTGGCCAGTTTGGAACCCGCCGC 274743 29 100.0 32 ............................. GCACAATTTGTGCTTTTGCAATTCACTTTGAA 274804 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 274865 29 100.0 32 ............................. TGATCACAGAACTGACCGGGTACACCATACCT 274926 29 100.0 32 ............................. TAACGCCGTTCTGCATACGCTCTACCGCGCGC 274987 29 100.0 32 ............................. GGGAATGTATGGATTTAGAAGAAGAGCTGGCA 275048 29 100.0 32 ............................. GGGTATTACGGCGACACAGCGCTTGTTGTCTA 275109 29 100.0 32 ............................. TTAACAAATGTTTTTAAAACGCTTATAACAAA 275170 29 100.0 32 ............................. GGGGCGGCAATGGTGGTCAGGGTGATGGCGGC 275231 29 100.0 32 ............................. TTTAAAAATTTATCTCGATAAATCCAACGATG 275292 29 100.0 32 ............................. AATGATCGTATTTTTCGCTACGTCGCACAAAT 275353 29 100.0 32 ............................. CCCGTTATTTGTAGTTAACGGGCACGTAGTGG 275414 29 100.0 32 ............................. ATCGGGCAGCTCAACGCGGCTATGAAAATCAC 275475 29 100.0 32 ............................. TTGATCGCCGTGGCGGTGAGATTAGAAACGCG 275536 29 100.0 32 ............................. CTGCCAAACTTCTGACAATCCCGGACAGCATC 275597 29 100.0 32 ............................. CGAGTCTGGAAATTGAGGACACCGAAACCGGC 275658 29 100.0 32 ............................. TGCTGGTGGGCGGTACGCCGTGCCAGGCGTTC 275719 29 96.6 32 ............................T TATCCTTACCCTCAACGGCGCAGGCCGATCTC 275780 29 100.0 32 ............................. CGATCTGGTGAGCGCATCGGTTCGGGAGAGTG 275841 29 100.0 32 ............................. GATTGTTCAGATTGGGAATTTGACCAACGCCC 275902 29 69.0 11 ................TAAT..CGT.T.C GTGAACCAGTT TT [275922] Deletion [275942] 275944 29 100.0 32 ............................. GGGAATATCGTTAAAGTGGTTTACCACAATAT 276005 29 100.0 32 ............................. GCGCTCAGGGCCGCCTTGCTGCGGGCACTCAT 276066 29 100.0 32 ............................. GACGTGATCAAACAATTTGGCCGCCCGGAACA 276127 29 100.0 32 ............................. CGATCAAGCGAATGCGTCGGCTGGAGCATCGC 276188 29 100.0 32 ............................. GTTTTCGCGGCCGCGAGATTGTTCTTGCCGAC 276249 29 100.0 32 ............................. TACCGTTTTTACTCCCCCGCATTTGGTTACAC 276310 29 100.0 32 ............................. CAGGAGCAAGCACAAACATAGAGCAAATTAAA 276371 29 100.0 32 ............................. CCAGTGCATTCGAACTCATGGAACGGTGCTAA 276432 29 100.0 32 ............................. GCGCACCGCTTTAGAGTGCCAGGCATAGGCAA 276493 29 100.0 32 ............................. ACACAATACGTATCAGTAAAGACACAAATTGT 276554 29 100.0 32 ............................. CGCATTACCGGGAAAACCTGGGAAGAGACGAT 276615 29 100.0 32 ............................. TCTTGTTTGTTTCTGATTCTTTTTCTGAATGA 276676 29 100.0 32 ............................. AGTCAGAAGAGGACTCATTAGTATCACTCTCA 276737 29 100.0 32 ............................. AATAAACAGCGTCGTAAATGGATCGAGGAAAT 276798 29 100.0 32 ............................. CATCTCTCTATATGCAGCGCCAGCCAGCGCAA 276859 29 100.0 32 ............................. CTTTCCTTGCGTCAATTTTGAGGGAGATTGAT 276920 29 100.0 32 ............................. ATCCCGCGCTCTATTAAAATCTTTGATTGCGT 276981 29 100.0 32 ............................. GTAATGTGCGCCGCGCCGGTGATATCTACTTT 277042 29 96.6 32 .....T....................... CCATTGCTGACAGGCAGTGATTTCAATGTGTC 277103 29 100.0 32 ............................. GTCATGAATGGCCTCATAAAAACGATGTTGGT 277164 29 100.0 32 ............................. TGTTCGCGCTAAATAATGCAGTAGGCCGCGCT 277225 29 100.0 32 ............................. CCAGAAATTTAAATGGCTATTCCTGGCTGTAG 277286 29 100.0 32 ............................. GCGCAATTGCAGTTTGACGCGGTGCTGTCATT 277347 29 100.0 32 ............................. TCGTTTGTGGCGTCAGTAATACTATTATCGGT 277408 29 96.6 32 .............T............... TTTTTAAATCCGGACAGACCCTGTAACGGATC 277469 29 100.0 32 ............................. ATCCGACTGTATGCCCAGCAGAACGAGGGCGC 277530 29 96.6 32 .............T............... CACGAGTGGCAAATTGATTTCGACGAAAAACC 277591 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 51 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCAGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 5:0, 6:0.25, 7:-0.02, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 294164-296451 **** Predicted by CRISPRDetect 2.4 *** >NZ_JWRA01000016.1 Salmonella enterica subsp. enterica serovar Senftenberg strain CFSAN024722 CFSAN024722_contig0015, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 294164 29 100.0 32 ............................. GCAATTTCCGATATGCGACTTGGGACACCAAT 294225 29 100.0 32 ............................. ACACCGACTCATCCGTTGTTACTCCTGGTATT 294286 29 100.0 32 ............................. CACATCGGGAGCCTCAATCAACCCGGCACGGA 294347 29 100.0 32 ............................. AGTTCGATATCCCTTAACGGTACTGCCGTCCT 294408 29 100.0 32 ............................. CCTCACGCAATTGAGCCTCTTTCTCGACACGC 294469 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 294530 29 100.0 32 ............................. TTCATCACCGTCAGCAAGCTGCGATCCGAAAT 294591 29 100.0 32 ............................. CCAGCTTGCCGATATCAACGACCTATACCTGT 294652 29 100.0 32 ............................. GTTAAAATTTGGGAGGATCGCCCGGGACTCCC 294713 29 100.0 32 ............................. GGACCATTGAAACGGCGCTGACATCAGATGTT 294774 29 100.0 32 ............................. TACCGAACGGCTCAAAGTATGTTCCAATTGAC 294835 29 100.0 32 ............................. GTTGAAACCAGCATTCCTTATGCTGTGCTGCC 294896 29 100.0 32 ............................. GAGATTTTTCTTGTCCCGCCACACCAGCGGCT 294957 29 100.0 32 ............................. TGCATCATCTGATTCGTACGATACGGCAGGGT 295018 29 100.0 32 ............................. GGCCGCACCGCTGGCGATCACGATTAATCAGC 295079 29 100.0 32 ............................. CGCCTCGCAAAACTGGTCGGGGTTTTTCCCCA 295140 29 100.0 32 ............................. TTCGTGTTCTAACAGCAGATCGCTGATACGGC 295201 29 100.0 32 ............................. CCAGTAATGAAACGCTGGCAACATTGACGAGC 295262 29 100.0 32 ............................. CGCAGACGGCGCAATTGGATTCGGTGATCGGG 295323 29 100.0 32 ............................. TGCTCGAGCCGACATTGATCCCGCAAAAATAC 295384 29 100.0 32 ............................. GGATGCCGATAGCGGTCAGTAATGAAAATGGC 295445 29 100.0 32 ............................. AAGATCCTGTCTCTTTTGTGCGGAGCGCCGAC 295506 29 100.0 32 ............................. TTCGTTTGATCTCCACTCACAACGGTATTGAA 295567 29 100.0 33 ............................. GACAATTAGTTCCGACAGACGCCGGTATTAAAT 295629 29 96.6 32 ............T................ CCCACGCGCGGCCGCACTGGCCTCGCGGATAA 295690 29 100.0 32 ............................. TCCGGGCCGCCGCTACCACCACTCAGCGGCGT 295751 29 100.0 32 ............................. CCTAATGGTGATGGGGCGTTTAATCTTATCTC 295812 29 100.0 32 ............................. TGGTTTAATAGTATCGGGCAGCATTTTACCGA 295873 29 100.0 32 ............................. ATCTCAATTAGTCCGTTTCCGGTTGAATCAAT 295934 29 96.6 32 ...C......................... GGGTGTACCACGGCATGATGACGGCCAGCCAT 295995 29 100.0 32 ............................. ATTGACAACAGTCTGCTTACCCGAGCTGCTCC 296056 29 100.0 32 ............................. TCCTGTCGGCGGTACGGTGGACATCCCGCAGG 296117 29 96.6 32 .........A................... CCAGTCAGCCACTGTTCTTTGCCGTACCTTTC 296178 29 100.0 32 ............................. GGGTTATAACCGGGATACCATCCGCTCCAACC 296239 29 100.0 32 ............................. CGCCACGTTTTTTGCATTTTATTGGCATCATC 296300 29 100.0 32 ............................. GGCAACTGGGCGATCATCTGGGCGCTGTTTAT 296361 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 296422 29 100.0 0 ............................. | A [296449] ========== ====== ====== ====== ============================= ================================= ================== 38 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GTTTCCCCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 5:0, 6:0.25, 7:0.01, 8:1, 9:1, # Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats), # Primary repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Alternate repeat : NA # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-46.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //